HL_5IT9_019

3D structure

PDB id

5IT9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the yeast Kluyveromyces lactis small ribosomal subunit in complex with the cricket paralysis virus IRES.

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

AUUUUGUUGGUUUCU

Length

15 nucleotides

Bulged bases

None detected

QA status

Unknown status

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

HL_5IT9_019 not in the Motif Atlas

Homologous match to HL_4V88_205

Geometric discrepancy: 0.2405

The information below is about HL_4V88_205

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_88364.1

Basepair signature

cWW-cWW-F-F-F-F-F-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

5IT9|1|2|A|828
5IT9|1|2|U|829
5IT9|1|2|U|830
5IT9|1|2|U|831
5IT9|1|2|U|832
5IT9|1|2|G|833
5IT9|1|2|U|834
5IT9|1|2|U|835
5IT9|1|2|G|836
5IT9|1|2|G|837
5IT9|1|2|U|838
5IT9|1|2|U|839
5IT9|1|2|U|840
5IT9|1|2|C|841
5IT9|1|2|U|842

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain L

Ribosomal protein uS17